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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
184
total RNA-seq
26
ChIP-seq
22
ATAC-seq
3
DNase-seq
3
Hi-C
3
WGBS
3
pCHi-C
3
small RNA-seq
2
STARR-seq
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
188
Transcription
26
DNA binding
25
DNA accessibility
4
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
11
histone
11
histone modification
11
transcription factor
6
narrow histone mark
5
broad histone mark
4
control
1
RNA binding protein
Date released
144
May, 2020
40
May, 2022
31
August, 2021
10
July, 2019
7
October, 2019
6
August, 2017
5
December, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
February, 2020
Available data
628
bam
570
bigWig
fastq
390
bed narrowPeak
307
bigBed narrowPeak
174
tsv
tagAlign
60
bed broadPeak
60
bigBed broadPeak
10
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
252
Homo sapiens
Biosample type
208
tissue
34
cell line
10
primary cell
Organ
561
connective tissue
463
pancreas
439
adipose tissue
387
heart
354
kidney
260
epithelium
252
liver
224
vasculature
221
blood vessel
159
bone element
155
brain
135
artery
122
limb
79
musculature of body
61
eye
43
nerve
22
vein
18
ureter
16
skeleton
10
embryo
9
blood
9
bodily fluid
5
gonad
5
ovary
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
252
AMP
Genome assembly (visualization)
205
hg19
166
GRCh38
Lab
181
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
files.file_type!
fastq
tagAlign
month_released!
April, 2020
November, 2018
BIOSAMPLE
ASSAY
252 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
Hi-C
WGBS
pCHi-C
small RNA-seq
STARR-seq
RRBS
single cell RNA-seq
whole genome sequencing assay
tissue
liver
167
8
20
1
2
1
1
1
right lobe of liver
3
1
1
2
cell line
HepG2
9
18
1
1
2
2
1
primary cell
hepatocyte
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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